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Series GSE101074 Query DataSets for GSE101074
Status Public on Apr 25, 2018
Title TFAP2C regulates transcription in human naive pluripotency by opening enhancers
Organisms Homo sapiens; Mus musculus
Experiment type Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
Summary Naive and primed pluripotent human embryonic stem cells bear transcriptional similarity to pre- and post-implantation epiblast and thus constitute a developmental model for understanding the pluripotent stages in human embryo development. To identify new transcription factors that differentially regulate the unique pluripotent stages, we mapped open chromatin using ATAC-seq and found enrichment of the activator protein-2 (AP2) transcription factor binding motif at naive-specific open chromatin. We determined that the AP2 family member TFAP2C is upregulated during primed to naive reversion and becomes widespread at naive-specific enhancers. TFAP2C functions to maintain pluripotency and repress neuroectodermal differentiation during the transition from primed to naive by facilitating the opening of enhancers proximal to pluripotency factors. Additionally, we identify a previously undiscovered naive-specific POU5F1 (OCT4) enhancer enriched for TFAP2C binding. Taken together, TFAP2C establishes and maintains naive human pluripotency and regulates OCT4 expression by mechanisms that are distinct from mouse.
 
Overall design This dataset includes 52 RNA-seq, 37 ATAC-seq and 20 ChIP-seq samples.
 
Contributor(s) Pastor WA, Liu W
Citation(s) 29695788, 32048992
Submission date Jul 10, 2017
Last update date Jul 25, 2021
Contact name William Abraham Pastor
E-mail(s) william.pastor@mcgill.ca
Phone 514-618-3348
Organization name McGill University
Department Biochemistry
Lab Pastor
Street address 3655 Promenade Sir William Osler
City Montreal
State/province QC
ZIP/Postal code H3G 1Y6
Country USA
 
Platforms (4)
GPL16791 Illumina HiSeq 2500 (Homo sapiens)
GPL17021 Illumina HiSeq 2500 (Mus musculus)
GPL20301 Illumina HiSeq 4000 (Homo sapiens)
Samples (109)
GSM2698888 Untransfected cells 5d 5iLAF Replicate 1 RNA [RNA-Seq]
GSM2698889 Control transfected cells 5d 5iLAF Replicate 1 RNA [RNA-Seq]
GSM2698890 TFAP2C-/- Line 1 5d 5iLAF Replicate 1 RNA [RNA-Seq]
Relations
BioProject PRJNA393683
SRA SRP111459

Download family Format
SOFT formatted family file(s) SOFTHelp
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Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE101074_RAW.tar 8.6 Gb (http)(custom) TAR (of BW, TXT)
SRA Run SelectorHelp
Processed data provided as supplementary file
Raw data are available in SRA

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